NOTE: This program is no longer maintained, and technical support is not available.

Protein Structure Analysis Tool

Purpose: This page provides a visualization tool to interpret protein sequence alignment. It gives a color display of chemical properties, specifically the hydrophobicity or classification of amino acids.

Details:

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Color schemes used
Sample result for hydrophobicity
Sample result for chemical classification
Index to 3D Views of HIV Macromolecular Structures

last modified: Wed Aug 8 17:08 2007

Index of all tools	ADRA
Branchlength	Codon Alignment
Consensus Maker	ELF
ElimDupes	Entropy
Epilign	FindModel
Format converter	Gap strip/squeeze
Gene Cutter	HDent/HDdist
Heatmap	Hepitope
Highlighter	HIV BLAST
HIValign	Hypermutation
jpHMM at GOBICS	Mosaic Vaccine Tool Suite
Motif Scan	N-Glycosite
ODprep/ODfit	PCOORD
PeptGen	PhyloPlace
Primalign	Protein Feature Accent
Protein structure	Recombinant HIV-1 drawing tool
RIP	SeqPublish
Sequence locator	SNAP
SUDI subtyping	SynchAlign
Translate	Treemaker
External tools

Enter a title (optional)
Paste sequence alignment in FASTA format
Or upload a file in FASTA format
Choose output	Display hydrophobic properties---Rose scale Display hydrophobic properties---Kyte and Doolittle scale Display hydrophobic properties---Wolfenden scale Display hydrophobic properties---Janin scale Display chemical classifications of amino acid side chains